Vps41 (VPS41 subunit of HOPS complex) - Rat Genome Database

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Gene: Vps41 (VPS41 subunit of HOPS complex) Rattus norvegicus
Analyze
Symbol: Vps41
Name: VPS41 subunit of HOPS complex
RGD ID: 1560511
Description: Predicted to enable identical protein binding activity and microtubule binding activity. Predicted to be involved in several processes, including cellular response to starvation; endosomal vesicle fusion; and vacuolar transport. Predicted to be located in several cellular components, including cytoplasmic vesicle; lysosomal membrane; and microtubule cytoskeleton. Predicted to be part of AP-3 adaptor complex; clathrin complex; and lysosomal HOPS complex. Predicted to be active in late endosome. Human ortholog(s) of this gene implicated in autosomal recessive spinocerebellar ataxia 29. Orthologous to human VPS41 (VPS41 subunit of HOPS complex); INTERACTS WITH (+)-schisandrin B; acrylamide; benzo[a]pyrene.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: hypothetical protein LOC306991; LOC306991; RGD1560511; similar to Vps41 protein; vacuolar protein sorting 41 homolog; vacuolar protein sorting 41 homolog (S. cerevisiae); vacuolar protein sorting-associated protein 41 homolog; Vam2; VPS41 HOPS complex subunit
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81750,758,732 - 50,923,129 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1750,758,734 - 50,923,133 (-)EnsemblGRCr8
mRatBN7.21746,063,132 - 46,227,533 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1746,063,124 - 46,227,791 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1749,259,125 - 49,416,986 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01753,262,047 - 53,419,908 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01747,372,921 - 47,531,055 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01748,643,754 - 48,810,633 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1748,648,879 - 48,810,991 (-)Ensemblrn6Rnor6.0
Rnor_5.01746,702,308 - 46,866,329 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41753,893,474 - 54,063,005 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1742,165,613 - 42,324,736 (-)NCBICelera
Cytogenetic Map17q11NCBI
JBrowse:




Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Self-assembly of VPS41 promotes sorting required for biogenesis of the regulated secretory pathway. Asensio CS, etal., Dev Cell. 2013 Nov 25;27(4):425-37. doi: 10.1016/j.devcel.2013.10.007. Epub 2013 Nov 7.
2. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
3. GOA pipeline RGD automated data pipeline
4. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
5. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
6. Mammalian late vacuole protein sorting orthologues participate in early endosomal fusion and interact with the cytoskeleton. Richardson SC, etal., Mol Biol Cell 2004 Mar;15(3):1197-210. Epub 2003 Dec 10.
Additional References at PubMed
PMID:11412045   PMID:17897319   PMID:19109425   PMID:21411634   PMID:23167963   PMID:23901104   PMID:25783203   PMID:31904090  


Genomics

Comparative Map Data
Vps41
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81750,758,732 - 50,923,129 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1750,758,734 - 50,923,133 (-)EnsemblGRCr8
mRatBN7.21746,063,132 - 46,227,533 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1746,063,124 - 46,227,791 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1749,259,125 - 49,416,986 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01753,262,047 - 53,419,908 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01747,372,921 - 47,531,055 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01748,643,754 - 48,810,633 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1748,648,879 - 48,810,991 (-)Ensemblrn6Rnor6.0
Rnor_5.01746,702,308 - 46,866,329 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41753,893,474 - 54,063,005 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1742,165,613 - 42,324,736 (-)NCBICelera
Cytogenetic Map17q11NCBI
VPS41
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38738,722,974 - 38,909,191 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl738,722,974 - 38,932,394 (-)Ensemblhg38GRCh38
GRCh37738,762,574 - 38,948,791 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36738,730,068 - 38,915,325 (-)NCBIBuild 36Build 36hg18NCBI36
Build 34738,538,394 - 38,682,088NCBI
Celera738,751,388 - 38,936,638 (-)NCBICelera
Cytogenetic Map7p14.1NCBI
HuRef738,647,724 - 38,832,980 (-)NCBIHuRef
CHM1_1738,766,111 - 38,951,374 (-)NCBICHM1_1
T2T-CHM13v2.0738,880,029 - 39,066,224 (-)NCBIT2T-CHM13v2.0
CRA_TCAGchr7v2738,801,230 - 38,986,499 (-)NCBI
Vps41
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391318,901,462 - 19,050,981 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1318,901,456 - 19,050,981 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm381318,717,292 - 18,866,811 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1318,717,286 - 18,866,811 (+)Ensemblmm10GRCm38
MGSCv371318,809,161 - 18,958,680 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361318,724,764 - 18,874,268 (+)NCBIMGSCv36mm8
Celera1319,025,759 - 19,178,125 (+)NCBICelera
Cytogenetic Map13A2NCBI
cM Map136.75NCBI
Vps41
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554604,555,870 - 4,749,153 (+)Ensembl
ChiLan1.0NW_0049554604,555,870 - 4,749,154 (+)NCBIChiLan1.0ChiLan1.0
VPS41
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2643,554,730 - 43,762,833 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1791,879,465 - 92,087,568 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0739,355,578 - 39,543,281 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1739,589,893 - 39,776,992 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl739,590,587 - 39,776,937 (-)EnsemblpanPan2panpan1.1
VPS41
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11810,788,846 - 10,956,207 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1810,788,891 - 10,955,645 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha1810,636,490 - 10,810,220 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.01810,838,609 - 11,006,057 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1810,838,645 - 11,006,057 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11810,810,095 - 10,983,580 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01810,784,236 - 10,951,239 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01810,899,366 - 11,067,148 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Vps41
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440511895,084,728 - 95,242,966 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647814,293,108 - 14,454,707 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_00493647814,296,191 - 14,454,650 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
VPS41
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1855,301,624 - 55,466,628 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.11855,293,655 - 55,466,628 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21860,565,808 - 60,729,840 (+)NCBISscrofa10.2Sscrofa10.2susScr3
VPS41
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12119,629,271 - 19,814,360 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2119,629,282 - 19,817,649 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_0236660622,573,777 - 2,779,166 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Vps41
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474022,121,571 - 22,299,193 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462474022,121,772 - 22,297,514 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Vps41
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11437,554,182 - 37,712,370 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Vps41
1448 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:8
Count of miRNA genes:8
Interacting mature miRNAs:8
Transcripts:ENSRNOT00000067636
Prediction methods:Miranda, Rnahybrid
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
631497Bp98Blood pressure QTL 983.66arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)174949693265155015Rat
70210Cm15Cardiac mass QTL 156.5heart right ventricle mass (VT:0007033)heart right ventricle wet weight (CMO:0000072)173006647275066472Rat
8552966Pigfal18Plasma insulin-like growth factor 1 level QTL 188.7blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)171286094257860942Rat
152023626Bp403Blood pressure QTL 4033.86arterial blood pressure trait (VT:2000000)172413612784432719Rat
2301412Kidm40Kidney mass QTL 400.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)174238816487388164Rat
9590107Sffal7Serum free fatty acids level QTL 74.810.001blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)173310464578104645Rat
2302377Scl61Serum cholesterol level QTL 614.36blood HDL cholesterol amount (VT:0000184)serum high density lipoprotein cholesterol level (CMO:0000361)17622199858177198Rat
1354654Spl7Serum phospholipid level QTL 75.5blood phospholipid amount (VT:0006084)blood phospholipid level (CMO:0001169)173803135483031354Rat
70157Niddm32Non-insulin dependent diabetes mellitus QTL 324.34blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)172266079955604694Rat
9589151Insul30Insulin level QTL 308.820.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)171286094257860942Rat
1598871Memor5Memory QTL 55.3exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)174096801789341781Rat
1581512Cm55Cardiac mass QTL 552.80.05heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)172723344583975845Rat
1354629Scl31Serum cholesterol level QTL 314.1blood cholesterol amount (VT:0000180)blood total cholesterol level (CMO:0000051)173803135483031354Rat
61394Bp8Blood pressure QTL 82.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)172328632264246472Rat
9589057Scfw6Subcutaneous fat weight QTL 68.620.001subcutaneous adipose mass (VT:1000472)abdominal subcutaneous fat pad weight (CMO:0002069)171286094257860942Rat
2317045Aia11Adjuvant induced arthritis QTL 114.06joint integrity trait (VT:0010548)left rear ankle joint diameter (CMO:0002149)172652205171522051Rat
1600398Edcs5Endometrial carcinoma susceptibility QTL 52.2uterus morphology trait (VT:0001120)percentage of study population developing endometrioid carcinoma during a period of time (CMO:0001759)173544694975762341Rat
9590154Scort9Serum corticosterone level QTL 923.570.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)171286094257860942Rat
10450503Bp386Blood pressure QTL 3860.28arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)172201970567019705Rat
1559055Bp278Blood pressure QTL 2780.04arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)172385892668858926Rat
152025238Slep14Serum leptin concentration QTL 144.62blood leptin amount (VT:0005667)172439059584432719Rat
9590088Insglur7Insulin/glucose ratio QTL 720.380.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)171286094257860942Rat
1354638Insul1Insulin level QTL 14.8blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)173803135483031354Rat
2313854Bp343Blood pressure QTL 3433.9life span trait (VT:0005372)age at time of death (CMO:0001193)173219953455604694Rat
2317053Aia25Adjuvant induced arthritis QTL 252.69joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)171060469455604694Rat
1354635Bp245Blood pressure QTL 2456arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)173803135483031354Rat
1331765Hrtrt15Heart rate QTL 154.094heart pumping trait (VT:2000009)heart rate (CMO:0000002)171553702560531414Rat
8552928Pigfal9Plasma insulin-like growth factor 1 level QTL 99blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)173310464578104645Rat
7411666Foco31Food consumption QTL 3111.40.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)171286094257860942Rat
12904736Cm121Cardiac mass QTL 1210.043heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)174238816487388164Rat
1300148Bp192Blood pressure QTL 1923.47arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)174605012691050126Rat
12903980Cm120Cardiac mass QTL 1200.002heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)172385892668858926Rat
12903981Am17Aortic mass QTL 170.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)172385892668858926Rat
4889955Bss93Bone structure and strength QTL 934.4tibia size trait (VT:0100001)tibia cortical bone volume to tibia total bone volume ratio (CMO:0001727)172723344565155015Rat
4889891Eae32Experimental allergic encephalomyelitis QTL 324.80.0002nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis severity score (CMO:0001419)172723344572233445Rat
12903982Kidm70Kidney mass QTL 700.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)172385892668858926Rat
12903978Cm118Cardiac mass QTL 1180.001heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)172385892668858926Rat
2324621Coatc5Coat color QTL 5coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)174265489587654895Rat
12903979Cm119Cardiac mass QTL 1190.001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)172385892668858926Rat
1354619Bp242Blood pressure QTL 2426.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)173768787782687877Rat
1300129Rf25Renal function QTL 253.03blood creatinine amount (VT:0005328)creatinine clearance (CMO:0000765)174106235286062352Rat
152023740Bp406Blood pressure QTL 4066.06arterial blood pressure trait (VT:2000000)172413612784432719Rat
1354663Bvd5Brain ventricular dilatation QTL 53.510.001brain ventricle morphology trait (VT:0000822)hydrocephalus severity score (CMO:0001881)173219953486201342Rat
7488966Bp370Blood pressure QTL 3700.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)172385892668858926Rat
152023737Bp405Blood pressure QTL 4055.06arterial blood pressure trait (VT:2000000)2413612784432719Rat
152023736Bp404Blood pressure QTL 4043.78arterial blood pressure trait (VT:2000000)172413612784432719Rat
724528Uae4Urinary albumin excretion QTL 44.90.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)173604553781045537Rat

Markers in Region
D17Got56  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr81750,788,561 - 50,788,801 (+)Marker Load Pipeline
mRatBN7.21746,092,957 - 46,093,371 (+)MAPPERmRatBN7.2
mRatBN7.21746,092,957 - 46,093,197 (+)MAPPERmRatBN7.2
Rnor_6.01748,675,290 - 48,675,782NCBIRnor6.0
Rnor_6.01748,675,290 - 48,675,529NCBIRnor6.0
Rnor_5.01746,731,848 - 46,732,340UniSTSRnor5.0
Rnor_5.01746,731,848 - 46,732,087UniSTSRnor5.0
RGSC_v3.41753,927,134 - 53,927,374RGDRGSC3.4
RGSC_v3.41753,927,135 - 53,927,374UniSTSRGSC3.4
Celera1742,195,394 - 42,195,633UniSTS
RGSC_v3.11753,929,976 - 53,930,215RGD
RH 3.4 Map17474.99RGD
RH 3.4 Map17474.99UniSTS
RH 2.0 Map17352.3RGD
Cytogenetic Map17q11UniSTS
RH138162  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21746,224,372 - 46,224,511 (+)MAPPERmRatBN7.2
Rnor_6.01748,807,472 - 48,807,610NCBIRnor6.0
Rnor_5.01746,863,168 - 46,863,306UniSTSRnor5.0
RGSC_v3.41754,059,844 - 54,059,982UniSTSRGSC3.4
Celera1742,321,575 - 42,321,713UniSTS
Cytogenetic Map17q11UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 12 67 165 91 90 59 92 59 6 356 192 11 144 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000067636   ⟹   ENSRNOP00000063448
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1750,758,734 - 50,905,531 (-)Ensembl
mRatBN7.2 Ensembl1746,072,890 - 46,227,537 (-)Ensembl
Rnor_6.0 Ensembl1748,648,879 - 48,810,991 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000094441   ⟹   ENSRNOP00000095914
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1750,758,734 - 50,923,133 (-)Ensembl
mRatBN7.2 Ensembl1746,063,124 - 46,227,534 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000106258   ⟹   ENSRNOP00000096552
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1750,758,734 - 50,860,538 (-)Ensembl
mRatBN7.2 Ensembl1746,063,127 - 46,227,791 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000110907   ⟹   ENSRNOP00000083467
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1750,758,734 - 50,915,542 (-)Ensembl
mRatBN7.2 Ensembl1746,063,127 - 46,220,122 (-)Ensembl
RefSeq Acc Id: NM_001399318   ⟹   NP_001386247
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81750,758,739 - 50,923,129 (-)NCBI
mRatBN7.21746,063,132 - 46,227,533 (-)NCBI
RefSeq Acc Id: XM_039095720   ⟹   XP_038951648
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81750,758,732 - 50,860,605 (-)NCBI
mRatBN7.21746,063,132 - 46,164,951 (-)NCBI
Ensembl Acc Id: ENSRNOP00000063448   ⟸   ENSRNOT00000067636
RefSeq Acc Id: XP_038951648   ⟸   XM_039095720
- Peptide Label: isoform X1
- UniProtKB: A0A8I6AV86 (UniProtKB/TrEMBL),   A0A8I5ZWM9 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSRNOP00000096552   ⟸   ENSRNOT00000106258
Ensembl Acc Id: ENSRNOP00000083467   ⟸   ENSRNOT00000110907
Ensembl Acc Id: ENSRNOP00000095914   ⟸   ENSRNOT00000094441
RefSeq Acc Id: NP_001386247   ⟸   NM_001399318
- UniProtKB: A0A8I5ZWM9 (UniProtKB/TrEMBL),   A6K987 (UniProtKB/TrEMBL)
Protein Domains
RING-type

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZVH6-F1-model_v2 AlphaFold D3ZVH6 1-772 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen

Promoters
RGD ID:13700507
Promoter ID:EPDNEW_R11029
Type:single initiation site
Name:Vps41_1
Description:VPS41 HOPS complex subunit
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01748,810,632 - 48,810,692EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1560511 AgrOrtholog
BioCyc Gene G2FUF-9126 BioCyc
Ensembl Genes ENSRNOG00000012940 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000067636.5 UniProtKB/TrEMBL
  ENSRNOT00000094441 ENTREZGENE
  ENSRNOT00000094441.2 UniProtKB/TrEMBL
  ENSRNOT00000106258 ENTREZGENE
  ENSRNOT00000106258.2 UniProtKB/TrEMBL
  ENSRNOT00000110907.2 UniProtKB/TrEMBL
Gene3D-CATH 1.25.40.10 UniProtKB/TrEMBL
  2.130.10.10 UniProtKB/TrEMBL
InterPro Clathrin_H-chain/VPS_repeat UniProtKB/TrEMBL
  TPR-like_helical UniProtKB/TrEMBL
  VPS41 UniProtKB/TrEMBL
  Vps41/Vps8 UniProtKB/TrEMBL
  WD40/YVTN_repeat-like_dom UniProtKB/TrEMBL
  WD40_repeat_dom_sf UniProtKB/TrEMBL
  Znf_RING UniProtKB/TrEMBL
NCBI Gene 306991 ENTREZGENE
PANTHER PTHR12616 UniProtKB/TrEMBL
  VACUOLAR PROTEIN SORTING-ASSOCIATED PROTEIN 41 HOMOLOG UniProtKB/TrEMBL
Pfam Beta-prop_Vps41 UniProtKB/TrEMBL
  TPR_Vps41 UniProtKB/TrEMBL
  zf-RING_Vps41 UniProtKB/TrEMBL
PhenoGen Vps41 PhenoGen
PIRSF VPS41 UniProtKB/TrEMBL
PROSITE CHCR UniProtKB/TrEMBL
  ZF_RING_2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000012940 RatGTEx
SMART CLH UniProtKB/TrEMBL
Superfamily-SCOP RING/U-box UniProtKB/TrEMBL
  WD40_like UniProtKB/TrEMBL
UniProt A0A8I5ZWM9 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6AQ35_RAT UniProtKB/TrEMBL
  A0A8I6AV86 ENTREZGENE, UniProtKB/TrEMBL
  A6K987 ENTREZGENE, UniProtKB/TrEMBL
  D3ZVH6_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2019-04-02 Vps41  VPS41 subunit of HOPS complex  Vps41  VPS41 HOPS complex subunit  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2015-11-25 Vps41  VPS41 HOPS complex subunit  Vps41  vacuolar protein sorting 41 homolog (S. cerevisiae)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 RGD1560511  similar to Vps41 protein   RGD1560511_predicted  similar to Vps41 protein (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-07 RGD1560511_predicted  similar to Vps41 protein (predicted)  LOC306991  similar to Vps41 protein  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC306991  similar to Vps41 protein      Symbol and Name status set to provisional 70820 PROVISIONAL